miRNA display CGI


Results 1 - 20 of 49 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
13283 3' -55 NC_003409.1 + 31268 1.12 0.002203
Target:  5'- cACGGAGGAACCUACGUACACCCACCCa -3'
miRNA:   3'- -UGCCUCCUUGGAUGCAUGUGGGUGGG- -5'
13283 3' -55 NC_003409.1 + 44289 0.75 0.462042
Target:  5'- cACGGAGG-AUCUAC-UGCACCCaACCUc -3'
miRNA:   3'- -UGCCUCCuUGGAUGcAUGUGGG-UGGG- -5'
13283 3' -55 NC_003409.1 + 13662 0.75 0.500032
Target:  5'- cGCGGAGGAGCUaGCGU-CAaucaCCACCa -3'
miRNA:   3'- -UGCCUCCUUGGaUGCAuGUg---GGUGGg -5'
13283 3' -55 NC_003409.1 + 52154 0.74 0.559393
Target:  5'- cACGGGGGGugGCCUgugGCGUgugcGCGCUgGCCCc -3'
miRNA:   3'- -UGCCUCCU--UGGA---UGCA----UGUGGgUGGG- -5'
13283 3' -55 NC_003409.1 + 114579 0.74 0.569498
Target:  5'- uGCGGgugucgcgcuuuGGGGGCCUGCcaGC-CCCACCCc -3'
miRNA:   3'- -UGCC------------UCCUUGGAUGcaUGuGGGUGGG- -5'
13283 3' -55 NC_003409.1 + 93371 0.73 0.620552
Target:  5'- uGCGGAGGAugUUguggGCGUggcgACugCCGCCg -3'
miRNA:   3'- -UGCCUCCUugGA----UGCA----UGugGGUGGg -5'
13283 3' -55 NC_003409.1 + 131696 0.72 0.661594
Target:  5'- gGCGGccAGGGACuaccgCUGCGUggcACACCCACUg -3'
miRNA:   3'- -UGCC--UCCUUG-----GAUGCA---UGUGGGUGGg -5'
13283 3' -55 NC_003409.1 + 34521 0.72 0.671816
Target:  5'- ---cAGGGACCUGCGcgGCgagcucauGCCCACCCu -3'
miRNA:   3'- ugccUCCUUGGAUGCa-UG--------UGGGUGGG- -5'
13283 3' -55 NC_003409.1 + 51800 0.72 0.684039
Target:  5'- uUGGAGGAACUgcagaggcuggcGCGUgcuacgccggacccgGCACUCACCCg -3'
miRNA:   3'- uGCCUCCUUGGa-----------UGCA---------------UGUGGGUGGG- -5'
13283 3' -55 NC_003409.1 + 87181 0.71 0.702251
Target:  5'- gGCGGAGGGcgugGCCg----ACGCgCCACCCu -3'
miRNA:   3'- -UGCCUCCU----UGGaugcaUGUG-GGUGGG- -5'
13283 3' -55 NC_003409.1 + 133345 0.71 0.73215
Target:  5'- cACGGAuGGACCgg---ACACCUACCCu -3'
miRNA:   3'- -UGCCUcCUUGGaugcaUGUGGGUGGG- -5'
13283 3' -55 NC_003409.1 + 25901 0.7 0.741954
Target:  5'- -aGGGGGAcagcgcguaccgACCUAUGcGCGCCCACa- -3'
miRNA:   3'- ugCCUCCU------------UGGAUGCaUGUGGGUGgg -5'
13283 3' -55 NC_003409.1 + 118304 0.69 0.798427
Target:  5'- -gGGAGGAGgCUgGgGUGCGCCgCGCCg -3'
miRNA:   3'- ugCCUCCUUgGA-UgCAUGUGG-GUGGg -5'
13283 3' -55 NC_003409.1 + 118578 0.69 0.798427
Target:  5'- cGCGGcgcaccccAGGAACCcgGCGcggcGCACCCaggaACCCg -3'
miRNA:   3'- -UGCC--------UCCUUGGa-UGCa---UGUGGG----UGGG- -5'
13283 3' -55 NC_003409.1 + 119655 0.69 0.816136
Target:  5'- cUGGAGGuGACCc-CGUGCACCCgggcGCUCu -3'
miRNA:   3'- uGCCUCC-UUGGauGCAUGUGGG----UGGG- -5'
13283 3' -55 NC_003409.1 + 23355 0.69 0.816136
Target:  5'- cUGGAGGuGACCc-CGUGCACCCgggcGCUCu -3'
miRNA:   3'- uGCCUCC-UUGGauGCAUGUGGG----UGGG- -5'
13283 3' -55 NC_003409.1 + 5304 0.69 0.816136
Target:  5'- -aGGAGGGAUgUu--UGCACCCGCUCg -3'
miRNA:   3'- ugCCUCCUUGgAugcAUGUGGGUGGG- -5'
13283 3' -55 NC_003409.1 + 118533 0.69 0.833173
Target:  5'- cGCGGcgcaccccAGGAACCcgGCGcggcGCACCCcaggaACCCg -3'
miRNA:   3'- -UGCC--------UCCUUGGa-UGCa---UGUGGG-----UGGG- -5'
13283 3' -55 NC_003409.1 + 82949 0.69 0.833173
Target:  5'- gUGGAGGAACaaaugACGUGgGCCCAgaCg -3'
miRNA:   3'- uGCCUCCUUGga---UGCAUgUGGGUggG- -5'
13283 3' -55 NC_003409.1 + 121358 0.68 0.849474
Target:  5'- -aGGGGGAguuugACCUAgGUAguCCCugguGCCCu -3'
miRNA:   3'- ugCCUCCU-----UGGAUgCAUguGGG----UGGG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.